Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

132

Sequences:

677

Seq/Len:

5.13

HH_delta:

0.931 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

24_T

78_V

0.48289

3.114

26_S

104_D

0.46816

3.019

76_E

110_P

0.38454

2.480

35_T

38_N

0.37339

2.408

70_A

105_L

0.35774

2.307

70_A

107_F

0.33482

2.159

2_N

41_K

0.32931

2.123

27_F

31_V

0.32784

2.114

76_E

108_R

0.32018

2.065

20_M

114_P

0.31665

2.042

45_V

54_G

0.31314

2.019

78_V

108_R

0.30909

1.993

27_F

98_V

0.2858

1.843

70_A

77_I

0.27295

1.760

10_A

62_V

0.27116

1.748

13_A

40_Y

0.25484

1.643

68_N

94_R

0.25448

1.641

10_A

59_I

0.25299

1.631

118_Q

129_E

0.23916

1.542

14_I

25_F

0.23389

1.508

81_H

103_L

0.23382

1.508

119_A

128_V

0.23285

1.501

24_T

106_K

0.22732

1.466

24_T

108_R

0.22344

1.441

75_L

110_P

0.22273

1.436

79_E

106_K

0.21868

1.410

64_S

90_V

0.21569

1.391

5_H

41_K

0.21487

1.386

11_A

119_A

0.21174

1.365

14_I

62_V

0.20894

1.347

28_N

34_R

0.20319

1.310

15_N

118_Q

0.20066

1.294

36_A

55_I

0.19865

1.281

66_L

117_I

0.19863

1.281

97_T

103_L

0.19664

1.268

60_C

95_D

0.19572

1.262

20_M

23_E

0.19532

1.259

17_T

30_T

0.19367

1.249

31_V

98_V

0.19226

1.240

80_R

96_A

0.19104

1.232

68_N

90_V

0.19047

1.228

117_I

130_I

0.18908

1.219

11_A

126_L

0.18543

1.196

67_Y

71_L

0.17965

1.158

28_N

59_I

0.17819

1.149

27_F

63_S

0.17808

1.148

120_S

127_T

0.17555

1.132

32_G

39_G

0.1741

1.123

5_H

8_R

0.1728

1.114

42_P

53_P

0.17199

1.109

13_A

38_N

0.17156

1.106

67_Y

105_L

0.16913

1.091

120_S

129_E

0.16616

1.071

44_P

51_L

0.16434

1.060

9_L

12_Q

0.16286

1.050

65_T

69_A

0.16282

1.050

36_A

42_P

0.16252

1.048

28_N

32_G

0.16071

1.036

60_C

83_H

0.16028

1.034

61_Q

65_T

0.16015

1.033

107_F

117_I

0.15942

1.028

31_V

34_R

0.15778

1.017

3_R

62_V

0.1563

1.008

46_I

51_L

0.1562

1.007

67_Y

74_G

0.1555

1.003

44_P

53_P

0.15493

0.999

19_V

23_E

0.15422

0.994

46_I

87_V

0.15239

0.983

116_L

131_W

0.15238

0.983

33_P

101_G

0.15212

0.981

17_T

25_F

0.1521

0.981

33_P

100_Y

0.15064

0.971

115_I

130_I

0.14981

0.966

99_A

102_Y

0.14777

0.953

10_A

34_R

0.14689

0.947

19_V

122_D

0.14686

0.947

32_G

100_Y

0.14662

0.945

86_P

89_Y

0.14499

0.935

60_C

80_R

0.14432

0.931

80_R

95_D

0.14388

0.928

63_S

105_L

0.14346

0.925

43_A

54_G

0.14274

0.920

40_Y

43_A

0.14079

0.908

66_L

107_F

0.14014

0.904

81_H

106_K

0.13891

0.896

15_N

121_V

0.13678

0.882

114_P

131_W

0.13672

0.882

38_N

100_Y

0.13633

0.879

89_Y

95_D

0.13422

0.865

75_L

111_T

0.13298

0.857

75_L

115_I

0.13204

0.851

56_G

83_H

0.13133

0.847

68_N

72_R

0.13027

0.840

69_A

130_I

0.13001

0.838

46_I

85_Y

0.12968

0.836

39_G

84_S

0.12963

0.836

34_R

100_Y

0.12879

0.830

25_F

30_T

0.12776

0.824

67_Y

80_R

0.12665

0.817

82_P

98_V

0.12645

0.815

8_R

117_I

0.12599

0.812

4_T

8_R

0.1257

0.811

9_L

66_L

0.12468

0.804

67_Y

96_A

0.12461

0.804

122_D

127_T

0.1242

0.801

58_G

83_H

0.1237

0.798

23_E

36_A

0.12333

0.795

12_Q

15_N

0.12296

0.793

65_T

128_V

0.12265

0.791

8_R

121_V

0.12256

0.790

77_I

80_R

0.12246

0.790

4_T

121_V

0.12244

0.790

18_V

114_P

0.12119

0.781

72_R

94_R

0.12098

0.780

85_Y

99_A

0.11996

0.774

120_S

123_G

0.11981

0.773

60_C

89_Y

0.11977

0.772

34_R

59_I

0.11958

0.771

11_A

127_T

0.11933

0.769

80_R

89_Y

0.11891

0.767

86_P

92_P

0.11865

0.765

48_N

103_L

0.11861

0.765

63_S

98_V

0.11843

0.764

48_N

52_V

0.11818

0.762

47_V

52_V

0.11779

0.760

54_G

103_L

0.11733

0.757

49_G

52_V

0.11721

0.756

41_K

45_V

0.11677

0.753

16_G

116_L

0.11663

0.752

27_F

60_C

0.11608

0.749

68_N

91_P

0.11546

0.745

18_V

81_H

0.11521

0.743

53_P

97_T

0.11514

0.742

65_T

90_V

0.11489

0.741

39_G

57_G

0.11485

0.741

29_Q

37_E

0.11446

0.738

8_R

12_Q

0.1144

0.738

9_L

32_G

0.11381

0.734

45_V

52_V

0.11381

0.734

9_L

14_I

0.1137

0.733

3_R

64_S

0.11364

0.733

84_S

112_D

0.11342

0.731

14_I

27_F

0.11311

0.729

111_T

114_P

0.11298

0.729

74_G

115_I

0.11296

0.728

54_G

99_A

0.11285

0.728

18_V

77_I

0.1121

0.723

46_I

54_G

0.11163

0.720

74_G

111_T

0.11086

0.715

43_A

53_P

0.11064

0.713

70_A

130_I

0.11061

0.713

67_Y

86_P

0.11047

0.712

80_R

87_V

0.11037

0.712

23_E

108_R

0.11002

0.709

8_R

112_D

0.10979

0.708

14_I

19_V

0.10948

0.706

73_A

115_I

0.10852

0.700

65_T

68_N

0.10834

0.699

31_V

100_Y

0.10797

0.696

121_V

126_L

0.10779

0.695

15_N

125_K

0.10736

0.692

19_V

76_E

0.10736

0.692

42_P

55_I

0.10729

0.692

28_N

31_V

0.10647

0.687

45_V

87_V

0.10533

0.679

11_A

62_V

0.10476

0.676

37_E

125_K

0.10444

0.673

44_P

68_N

0.10436

0.673

41_K

76_E

0.10434

0.673

9_L

13_A

0.10426

0.672

61_Q

80_R

0.10396

0.670

122_D

125_K

0.10288

0.663

3_R

65_T

0.10285

0.663

73_A

130_I

0.10267

0.662

77_I

111_T

0.10189

0.657

44_P

84_S

0.1018

0.656

3_R

7_I

0.10179

0.656

67_Y

90_V

0.10151

0.655

57_G

83_H

0.10136

0.654

51_L

87_V

0.10135

0.654

71_L

77_I

0.10122

0.653

10_A

31_V

0.10108

0.652

87_V

97_T

0.10084

0.650

48_N

55_I

0.10074

0.650

72_R

82_P

0.10039

0.647

18_V

124_G

0.09869

0.636

48_N

106_K

0.09853

0.635

64_S

95_D

0.0984

0.635

43_A

88_S

0.09837

0.634

33_P

37_E

0.09821

0.633

111_T

115_I

0.0981

0.633

3_R

63_S

0.0978

0.631

65_T

89_Y

0.0971

0.626

2_N

23_E

0.09706

0.626

79_E

82_P

0.09702

0.626

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)